Crystallization of the glmS ribozyme-riboswitch.

Publication Type:

Journal Article

Source:

Methods in molecular biology (Clifton, N.J.), Volume 540, p.129-39 (2009)

Keywords:

2009, Bacterial Proteins, Base Sequence, Basic Sciences Division, CRYSTALLIZATION, Crystallography, X-Ray, Desiccation, Molecular Sequence Data, Nucleic Acid Conformation, Regulatory Sequences, Ribonucleic Acid, RNA, Catalytic, RNA, Untranslated, Thermoanaerobacter

Abstract:

Procedures that were critical for crystallization of the glmS ribozyme-riboswitch RNA domain from the thermophilic Gram-positive bacterium Thermoanaerobacter tengcongensis are described. Experimental design based on screening multiple variant RNA sequences and techniques used to identify initial crystallization conditions were similar to those employed for most RNAs. However, serendipitous in-drop digestion of one RNA construct at a specific internucleotide linkage was crucial for the growth of high-quality glmS ribozyme crystals. Biochemical analysis of crystalline RNA identified the site of scission and guided design of an optimized bimolecular RNA construct. Finally, modifications of ionic strength and pH of solutions used for stabilization of the crystals were essential for optimal diffraction and binding of the activator glucosamine-6-phosphate, respectively. Although their details are specific to the glmS ribozyme, these general strategies may be useful for analyzing and improving crystals of other RNAs.